BAC Information

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BAC

Clone NameMSMg01-126J20
Chromosome6 (Build37)
Map Location 56,294,087 - 56,294,602
singlet/doubletsinglet
Overlap genePde1c
Upstream geneAqp1, Ghrhr, Adcyap1r1, LOC100042219, Neurod6, LOC100041339, Ccdc129, Gsbs, LOC100041357
Downstream geneEG666688, Lsm5, 5830411G16Rik, LOC100042288, Kbtbd2, Fkbp9, Nt5c3, LOC100042327, V1rc21, V1rc19, V1rc20, EG434016, V1rc32, V1rc30, V1rc1, V1rc3, EG626397, V1rc4, V1rc5, V1rc7, V1rc6, LOC100041445, V1r-ps6, V1rc29
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-126J20.T7 (MSMg01no126_j20.b1)MSMg01-126J20.TJ (MSMg01no126_j20.g1)
ACCAG335383AG335384
length682722
length of high quality
(start - end)
518 (46 - 563)65 (312 - 376)
definitionCHROMAT_FILE: MSMg01no126_j20.b1 PHD_FILE: MSMg01no126_j20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:39:04 2005CHROMAT_FILE: MSMg01no126_j20.g1 PHD_FILE: MSMg01no126_j20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:39:04 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NTTTCAXXXXXXXXXXXXXXXXXXXXXXXXCTATTTCCAGAAATCCGCGG
AATTCTAGCTCAGCTCCAATACAGAGTGCGACATTGTTTGAAGCAAAACA
AAATGAATGAAGTATCACACATGTGAAGTAAAGCATACACTGATTTTCTT
GACTATAATAATTACTTTACCATTCTTATATCAAAATGTCATATTGAAAA
TGTTACATATACATCAGGAAAAGGGTGAATTAATGGATCAATTCAACCAC
GGCGCACATAACATTTCTTAAGTTCACTTATTATTTCATTACTTAGAGGT
TCCACCCACTTTCCCTGCACGGCCCACTTGTGTTCACACACAAATACCCA
TGCCCCTCTGCACTAGGAAGCACCTACTGCTGAAGAAGCACTGTAATGAG
AAATTCCATCACATATGCCTGTGAGAGCTGGGATTCCCTCAAATACTGTA
AGCCACACTGGAACTGTAAATGCAAAGGATGCAGGCTGGAGCGTTGTATC
CACGTGACCAGAGCCAGTGTATACTAAATAGCTTCGGGTTCCCCATCAAC
GTGCCTGCAAAGCACAGCCCAGAGCTAGACCAGACCCCTGTGTAAGTAGG
TACTTAAAGAAGGTGACAGATTCTTCTTCAATCACCCCTCCTACAGTCAA
ATCAAAAGGTTGCCCTTGCTTCGACACTCCAA
GTGTGTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXTCTCATCTATGGTGGCTGCTATGGAATGAGACAGG
AGACCTGGATGGGGCTCCCATGATTGTCACCACATGAACCTGCGTCTATG
TTGGATAGTAGTGTTTTACACAGATGGTTGACTGGACCGATGTACCAGCA
CTTGAACTTACATTGTGCTCAGATATAACTGCTTACAGATGAATTTATAC
TCCCATTAGCATATACAACATGCATGTGAGAAGAGGAACAAAGACCTTAG
TAATGAGACAAATCTTTGTGCTCTCTCTTCATTATACTGGCCCATTTTCT
GTTGCCATCACTAAATGCTGCGCACTGAACTGATTTACTACGAATCAACA
TTTACTTCAGCCCTGTTTCTGAAGGCTGGATGTTGAATGTCCCACCATCT
GGTGAGAACCTTCTATGATTATGGATTAGTCACTTTGCTCTTGTGAGTTC
CTAACAGCTCTTACGTTCTTACATCATTCATATCATGTGGTTTCTGACTC
GAGGTGATGTCACCTCTTATTACTCTCCACCTGCTTATACGGCTGCTTCT
GGGATCAACCTTTCACTCTGTGTATCTCAATATGGTCCGATTTTACTTCC
TCTTTTCCCTCCCTTCTTCCGACATCTGACCCTAGCGTGTTACTACATCC
TTGTGGTTCCCATACCGAAACC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no126_j20.b1 MSMg01no126_j20.b1 CHROMAT_FILE:
MSMg01no126_j20.b1 PHD_FILE: MSMg01no126_j20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:39:04 2005
         (518 letters)



>mm_chr6_56293883_56294802
          Length = 920

 Score =  920 bits (476), Expect = 0.0
 Identities = 506/516 (98%), Gaps = 2/516 (0%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctagctcagctcca-atacagagtgcgacattgtttgaagcaaaacaaaatgaat 63
           ||||||||||||||||  | ||||||||||||||| ||||||||||||||||||||||||
Sbjct: 205 gaattctagctcagcttaagatacagagtgcgacactgtttgaagcaaaacaaaatgaat 264

                                                                       
Query: 64  gaagtatcacacatgtgaagtaaagcatacactgattttcttgactataataattacttt 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 gaagtatcacacatgtgaagtaaagcatacactgattttcttgactataataattacttt 324

                                                                       
Query: 124 accattcttatatcaaaatgtcatattgaaaatgttacatatacatcaggaaaagggtga 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 accattcttatatcaaaatgtcatattgaaaatgttacatatacatcaggaaaagggtga 384

                                                                       
Query: 184 attaatggatcaattcaaccacggcgcacataacatttcttaagttcacttattatttca 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 attaatggatcaattcaaccacggcgcacataacatttcttaagttcacttattatttca 444

                                                                       
Query: 244 ttacttagaggttccacccactttccctgcacggcccacttgtgttcacacacaaatacc 303
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 ttacttagagattccacccactttccctgcacggcccacttgtgttcacacacaaatacc 504

                                                                       
Query: 304 catgcccctctgcactaggaagcacctactgctgaagaagcactgtaatgagaaattcca 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 catgcccctctgcactaggaagcacctactgctgaagaagcactgtaatgagaaattcca 564

                                                                       
Query: 364 tcacatatgcctgtgagagctgggattccctcaaatactgtaagccacactggaactgta 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 tcacatatgcctgtgagagctgggattccctcaaatactgtaagccacactggaactgta 624

                                                                       
Query: 424 aatgcaaaggatgcaggctggagcgttgtatccacgtgaccagagccagtgtatactaaa 483
           |||||||||||||||||||||||||||||||||| |||| |||||||||||| |||||||
Sbjct: 625 aatgcaaaggatgcaggctggagcgttgtatccatgtgagcagagccagtgtgtactaaa 684

                                               
Query: 484 tagcttc-gggttccccatcaacgtgcctgcaaagc 518
           ||||||| |||||||||||||| |||||||||||||
Sbjct: 685 tagcttcagggttccccatcaaagtgcctgcaaagc 720


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 23
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 518
Length of database: 920
Length adjustment: 10
Effective length of query: 508
Effective length of database: 910
Effective search space:   462280
Effective search space used:   462280
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)